Cargando…

Genome-wide analysis of the transcription factor binding preference of human bi-directional promoters and functional annotation of related gene pairs

BACKGROUND: Bi-directional gene pairs have received considerable attention for their prevalence in vertebrate genomes. However, their biological relevance and exact regulatory mechanism remain less understood. To study the inner properties of this gene organization and the difference between bi- and...

Descripción completa

Detalles Bibliográficos
Autores principales:	Liu, Bingchuan, Chen, Jiajia, Shen, Bairong
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2011
Materias:	Report
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3121118/ https://www.ncbi.nlm.nih.gov/pubmed/21689477 http://dx.doi.org/10.1186/1752-0509-5-S1-S2

Ejemplares similares

Identification and Functional Annotation of Genome-Wide ER-Regulated Genes in Breast Cancer Based on ChIP-Seq Data
por: Ding, Min, et al.
Publicado: (2012)

PeakAnalyzer: Genome-wide annotation of chromatin binding and modification loci
por: Salmon-Divon, Mali, et al.
Publicado: (2010)

Detecting genome-wide directional effects of transcription factor binding on polygenic disease risk
por: Reshef, Yakir A, et al.
Publicado: (2018)

Genome Wide Identification and Annotation of NGATHA Transcription Factor Family in Crop Plants
por: Salava, Hymavathi, et al.
Publicado: (2022)

The preservation of bidirectional promoter architecture in eukaryotes: what is the driving force?
por: Xu, Chao, et al.
Publicado: (2012)

Genome-Wide Identification of Transcription Start Sites, Promoters and Transcription Factor Binding Sites in E. coli
por: Mendoza-Vargas, Alfredo, et al.
Publicado: (2009)

The genome-wide binding profile of the Sulfolobus solfataricus transcription factor Ss-LrpB shows binding events beyond direct transcription regulation
por: Nguyen-Duc, Trong, et al.
Publicado: (2013)

Dry and wet approaches for genome-wide functional annotation of conventional and unconventional transcriptional activators
por: Levati, Elisabetta, et al.
Publicado: (2016)

Evolution of binding preferences among whole-genome duplicated transcription factors
por: Gera, Tamar, et al.
Publicado: (2022)

Genome-wide transcription factor binding site/promoter databases for the analysis of gene sets and co-occurrence of transcription factor binding motifs
por: Veerla, Srinivas, et al.
Publicado: (2010)

Genome-wide annotation of microRNA primary transcript structures reveals novel regulatory mechanisms
por: Chang, Tsung-Cheng, et al.
Publicado: (2015)

Diurnal Cycling Transcription Factors of Pineapple Revealed by Genome-Wide Annotation and Global Transcriptomic Analysis
por: Sharma, Anupma, et al.
Publicado: (2017)

Estimating binding properties of transcription factors from genome-wide binding profiles
por: Zabet, Nicolae Radu, et al.
Publicado: (2015)

Genome-Wide Binding of MBD2 Reveals Strong Preference for Highly Methylated Loci
por: Menafra, Roberta, et al.
Publicado: (2014)

DBH2H: vertebrate head-to-head gene pairs annotated at genomic and post-genomic levels
por: Yu, Hui, et al.
Publicado: (2009)

Identifying Functional Transcription Factor Binding Sites in Yeast by Considering Their Positional Preference in the Promoters
por: Lai, Fu-Jou, et al.
Publicado: (2013)

EPIGENE: genome-wide transcription unit annotation using a multivariate probabilistic model of histone modifications
por: Sahu, Anshupa, et al.
Publicado: (2020)

Genome-wide identification and characterization of Solanum tuberosum BiP genes reveal the role of the promoter architecture in BiP gene diversity
por: Herath, Venura, et al.
Publicado: (2020)

Augmented base pairing networks encode RNA-small molecule binding preferences
por: Oliver, Carlos, et al.
Publicado: (2020)

Genome-wide CIITA-binding profile identifies sequence preferences that dictate function versus recruitment
por: Scharer, Christopher D., et al.
Publicado: (2015)

Top associated SNPs in prostate cancer are significantly enriched in cis-expression quantitative trait loci and at transcription factor binding sites
por: Jiang, Junfeng, et al.
Publicado: (2014)

The past, present and future of genome-wide re-annotation
por: Ouzounis, Christos A, et al.
Publicado: (2002)

Genome-wide metabolic (re-) annotation of Kluyveromyces lactis
por: Dias, Oscar, et al.
Publicado: (2012)

Combining learning and constraints for genome-wide protein annotation
por: Teso, Stefano, et al.
Publicado: (2019)

Genome-wide annotation of protein-coding genes in pig
por: Karlsson, Max, et al.
Publicado: (2022)

Post genome-wide association studies functional characterization of prostate cancer risk loci
por: Jiang, Junfeng, et al.
Publicado: (2013)

Mapping genome-wide transcription factor binding sites in frozen tissues
por: Savic, Daniel, et al.
Publicado: (2013)

Function Annotation of Hepatic Retinoid x Receptor α Based on Genome-Wide DNA Binding and Transcriptome Profiling
por: Zhan, Qi, et al.
Publicado: (2012)

Genome-wide identification of transcription factors and transcription-factor binding sites in oleaginous microalgae Nannochloropsis
por: Hu, Jianqiang, et al.
Publicado: (2014)

Genome-wide functional annotation and structural verification of metabolic ORFeome of Chlamydomonas reinhardtii
por: Ghamsari, Lila, et al.
Publicado: (2011)

Genome-Wide Identification of the SQUAMOSA Promoter-Binding Protein-like (SPL) Transcription Factor Family in Sweet Cherry Fruit
por: Sun, Yueting, et al.
Publicado: (2023)

Annotation of pituitary neuroendocrine tumors with genome-wide expression analysis
por: Tebani, Abdellah, et al.
Publicado: (2021)

Transcript‐ and annotation‐guided genome assembly of the European starling
por: Stuart, Katarina C., et al.
Publicado: (2022)

An ex vivo Model of Paired Cultured Hippocampal Neurons for Bi-directionally Studying Synaptic Transmission and Plasticity
por: Stanika, Ruslan, et al.
Publicado: (2023)

Genome-wide prediction of transcription factor binding sites using an integrated model
por: Won, Kyoung-Jae, et al.
Publicado: (2010)

Genome-wide conserved consensus transcription factor binding motifs are hyper-methylated
por: Choy, Mun-Kit, et al.
Publicado: (2010)

Genome-wide binding of transcription factors in inv(16) acute myeloid leukemia
por: Mandoli, A., et al.
Publicado: (2014)

Genome-wide analysis of transcription factor binding sites and their characteristic DNA structures
por: Dai, Zhiming, et al.
Publicado: (2015)

Prediction of genome-wide effects of single nucleotide variants on transcription factor binding
por: Carrasco Pro, Sebastian, et al.
Publicado: (2020)

Modeling binding specificities of transcription factor pairs with random forests
por: Antikainen, Anni A., et al.
Publicado: (2022)

Cannot write session to /tmp/vufind_sessions/sess_n700gsbht63tfqvu7077p54c37